data_1S56 # _model_server_result.job_id Ksoe80MDReGGKXYUdSNBxw _model_server_result.datetime_utc '2024-11-22 19:10:35' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 1s56 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":144}' # _entry.id 1S56 # _exptl.entry_id 1S56 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 1S56 _cell.length_a 44.321 _cell.length_b 61.959 _cell.length_c 90.747 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1S56 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,Q 1 1 B,J,K,L,M,N,O,P,R 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id L _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A O GLN 79 A GLN 79 1_555 D K K . A K 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? metalc ? metalc2 A O VAL 80 A VAL 80 1_555 D K K . A K 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.185 ? metalc ? metalc3 A NE2 HIS 81 A HIS 81 1_555 E FE HEC . A HEC 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc4 A O GLN 82 A GLN 82 1_555 D K K . A K 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? metalc ? metalc5 E FE HEC . A HEC 144 1_555 C C CYN . A CYN 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.108 ? metalc ? metalc6 E FE HEC . A HEC 144 1_555 C N CYN . A CYN 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? metalc ? metalc7 D K K . A K 401 1_555 B O GLY 83 B GLY 83 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.853 ? metalc ? metalc8 B NE2 HIS 81 B HIS 81 1_555 L FE HEM . B HEM 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc9 L FE HEM . B HEM 144 1_555 J N CYN . B CYN 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.787 ? metalc ? metalc10 L FE HEM . B HEM 144 1_555 J C CYN . B CYN 245 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag CHA C1A HEM sing 201 n n CHA C4D HEM doub 202 n n CHA HHA HEM sing 203 n n CHB C4A HEM sing 204 n n CHB C1B HEM doub 205 n n CHB HHB HEM sing 206 n n CHC C4B HEM sing 207 n n CHC C1C HEM doub 208 n n CHC HHC HEM sing 209 n n CHD C4C HEM doub 210 n n CHD C1D HEM sing 211 n n CHD HHD HEM sing 212 n n C1A C2A HEM doub 213 n y C1A NA HEM sing 214 n y C2A C3A HEM sing 215 n y C2A CAA HEM sing 216 n n C3A C4A HEM doub 217 n y C3A CMA HEM sing 218 n n C4A NA HEM sing 219 n y CMA HMA HEM sing 220 n n CMA HMAA HEM sing 221 n n CMA HMAB HEM sing 222 n n CAA CBA HEM sing 223 n n CAA HAA HEM sing 224 n n CAA HAAA HEM sing 225 n n CBA CGA HEM sing 226 n n CBA HBA HEM sing 227 n n CBA HBAA HEM sing 228 n n CGA O1A HEM doub 229 n n CGA O2A HEM sing 230 n n C1B C2B HEM sing 231 n n C1B NB HEM sing 232 n n C2B C3B HEM doub 233 n n C2B CMB HEM sing 234 n n C3B C4B HEM sing 235 n n C3B CAB HEM sing 236 n n C4B NB HEM doub 237 n n CMB HMB HEM sing 238 n n CMB HMBA HEM sing 239 n n CMB HMBB HEM sing 240 n n CAB CBB HEM doub 241 n n CAB HAB HEM sing 242 n n CBB HBB HEM sing 243 n n CBB HBBA HEM sing 244 n n C1C C2C HEM sing 245 n y C1C NC HEM sing 246 n y C2C C3C HEM doub 247 n y C2C CMC HEM sing 248 n n C3C C4C HEM sing 249 n y C3C CAC HEM sing 250 n n C4C NC HEM sing 251 n y CMC HMC HEM sing 252 n n CMC HMCA HEM sing 253 n n CMC HMCB HEM sing 254 n n CAC CBC HEM doub 255 n n CAC HAC HEM sing 256 n n CBC HBC HEM sing 257 n n CBC HBCA HEM sing 258 n n C1D C2D HEM sing 259 n n C1D ND HEM doub 260 n n C2D C3D HEM doub 261 n n C2D CMD HEM sing 262 n n C3D C4D HEM sing 263 n n C3D CAD HEM sing 264 n n C4D ND HEM sing 265 n n CMD HMD HEM sing 266 n n CMD HMDA HEM sing 267 n n CMD HMDB HEM sing 268 n n CAD CBD HEM sing 269 n n CAD HAD HEM sing 270 n n CAD HADA HEM sing 271 n n CBD CGD HEM sing 272 n n CBD HBD HEM sing 273 n n CBD HBDA HEM sing 274 n n CGD O1D HEM doub 275 n n CGD O2D HEM sing 276 n n O2A H2A HEM sing 277 n n O2D H2D HEM sing 278 n n FE NA HEM sing 279 n n FE NB HEM sing 280 n n FE NC HEM sing 281 n n FE ND HEM sing 282 n n # _atom_sites.entry_id 1S56 _atom_sites.fract_transf_matrix[1][1] 0.022563 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01614 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.01102 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 CYN A 1 145 145 CYN CYN . D 3 K A 1 401 1 K K1 . E 4 HEC A 1 144 144 HEC HEM . F 5 XE A 1 202 2 XE XE . G 5 XE A 1 203 3 XE XE . H 5 XE A 1 207 7 XE XE . I 5 XE A 1 208 8 XE XE . J 2 CYN B 1 245 145 CYN CYN . K 6 PO4 B 1 301 1 PO4 PO4 . L 7 HEM B 1 144 144 HEM HEM . M 5 XE B 1 201 1 XE XE . N 5 XE B 1 204 4 XE XE . O 5 XE B 1 205 5 XE XE . P 5 XE B 1 206 6 XE XE . Q 8 HOH A 1 402 2 HOH HOH . Q 8 HOH A 2 403 3 HOH HOH . Q 8 HOH A 3 404 4 HOH HOH . Q 8 HOH A 4 405 6 HOH HOH . Q 8 HOH A 5 406 7 HOH HOH . Q 8 HOH A 6 407 8 HOH HOH . Q 8 HOH A 7 408 10 HOH HOH . Q 8 HOH A 8 409 12 HOH HOH . Q 8 HOH A 9 410 14 HOH HOH . Q 8 HOH A 10 411 15 HOH HOH . Q 8 HOH A 11 412 16 HOH HOH . Q 8 HOH A 12 413 17 HOH HOH . Q 8 HOH A 13 414 18 HOH HOH . Q 8 HOH A 14 415 20 HOH HOH . Q 8 HOH A 15 416 21 HOH HOH . Q 8 HOH A 16 417 23 HOH HOH . Q 8 HOH A 17 418 28 HOH HOH . Q 8 HOH A 18 419 30 HOH HOH . Q 8 HOH A 19 420 33 HOH HOH . Q 8 HOH A 20 421 34 HOH HOH . Q 8 HOH A 21 422 35 HOH HOH . Q 8 HOH A 22 423 36 HOH HOH . Q 8 HOH A 23 424 38 HOH HOH . Q 8 HOH A 24 425 42 HOH HOH . Q 8 HOH A 25 426 43 HOH HOH . Q 8 HOH A 26 427 46 HOH HOH . Q 8 HOH A 27 428 49 HOH HOH . Q 8 HOH A 28 429 50 HOH HOH . Q 8 HOH A 29 430 51 HOH HOH . Q 8 HOH A 30 431 53 HOH HOH . Q 8 HOH A 31 432 54 HOH HOH . Q 8 HOH A 32 433 55 HOH HOH . Q 8 HOH A 33 434 58 HOH HOH . Q 8 HOH A 34 435 59 HOH HOH . Q 8 HOH A 35 436 60 HOH HOH . Q 8 HOH A 36 437 61 HOH HOH . Q 8 HOH A 37 438 63 HOH HOH . Q 8 HOH A 38 439 64 HOH HOH . Q 8 HOH A 39 440 65 HOH HOH . Q 8 HOH A 40 441 67 HOH HOH . Q 8 HOH A 41 442 69 HOH HOH . Q 8 HOH A 42 443 70 HOH HOH . Q 8 HOH A 43 444 71 HOH HOH . Q 8 HOH A 44 445 72 HOH HOH . Q 8 HOH A 45 446 73 HOH HOH . Q 8 HOH A 46 447 74 HOH HOH . Q 8 HOH A 47 448 76 HOH HOH . Q 8 HOH A 48 449 78 HOH HOH . Q 8 HOH A 49 450 80 HOH HOH . Q 8 HOH A 50 451 81 HOH HOH . Q 8 HOH A 51 452 82 HOH HOH . Q 8 HOH A 52 453 87 HOH HOH . Q 8 HOH A 53 454 90 HOH HOH . Q 8 HOH A 54 455 91 HOH HOH . Q 8 HOH A 55 456 92 HOH HOH . Q 8 HOH A 56 457 94 HOH HOH . Q 8 HOH A 57 458 97 HOH HOH . Q 8 HOH A 58 459 98 HOH HOH . Q 8 HOH A 59 460 99 HOH HOH . Q 8 HOH A 60 461 101 HOH HOH . Q 8 HOH A 61 462 102 HOH HOH . Q 8 HOH A 62 463 106 HOH HOH . R 8 HOH B 1 302 1 HOH HOH . R 8 HOH B 2 303 5 HOH HOH . R 8 HOH B 3 304 9 HOH HOH . R 8 HOH B 4 305 11 HOH HOH . R 8 HOH B 5 306 13 HOH HOH . R 8 HOH B 6 307 19 HOH HOH . R 8 HOH B 7 308 22 HOH HOH . R 8 HOH B 8 309 24 HOH HOH . R 8 HOH B 9 310 25 HOH HOH . R 8 HOH B 10 311 26 HOH HOH . R 8 HOH B 11 312 27 HOH HOH . R 8 HOH B 12 313 29 HOH HOH . R 8 HOH B 13 314 31 HOH HOH . R 8 HOH B 14 315 32 HOH HOH . R 8 HOH B 15 316 37 HOH HOH . R 8 HOH B 16 317 39 HOH HOH . R 8 HOH B 17 318 40 HOH HOH . R 8 HOH B 18 319 41 HOH HOH . R 8 HOH B 19 320 44 HOH HOH . R 8 HOH B 20 321 45 HOH HOH . R 8 HOH B 21 322 47 HOH HOH . R 8 HOH B 22 323 48 HOH HOH . R 8 HOH B 23 324 52 HOH HOH . R 8 HOH B 24 325 56 HOH HOH . R 8 HOH B 25 326 57 HOH HOH . R 8 HOH B 26 327 62 HOH HOH . R 8 HOH B 27 328 66 HOH HOH . R 8 HOH B 28 329 68 HOH HOH . R 8 HOH B 29 330 75 HOH HOH . R 8 HOH B 30 331 77 HOH HOH . R 8 HOH B 31 332 79 HOH HOH . R 8 HOH B 32 333 83 HOH HOH . R 8 HOH B 33 334 84 HOH HOH . R 8 HOH B 34 335 85 HOH HOH . R 8 HOH B 35 336 86 HOH HOH . R 8 HOH B 36 337 88 HOH HOH . R 8 HOH B 37 338 89 HOH HOH . R 8 HOH B 38 339 93 HOH HOH . R 8 HOH B 39 340 95 HOH HOH . R 8 HOH B 40 341 96 HOH HOH . R 8 HOH B 41 342 100 HOH HOH . R 8 HOH B 42 343 103 HOH HOH . R 8 HOH B 43 344 104 HOH HOH . R 8 HOH B 44 345 105 HOH HOH . R 8 HOH B 45 346 107 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C CHA HEM . . . L 7 9.059 -7.728 17.916 1 30.2 ? CHA HEM 144 B 1 HETATM 2 C CHB HEM . . . L 7 8.059 -9.168 13.361 1 30.29 ? CHB HEM 144 B 1 HETATM 3 C CHC HEM . . . L 7 11.091 -12.953 13.49 1 30.35 ? CHC HEM 144 B 1 HETATM 4 C CHD HEM . . . L 7 11.414 -12.045 18.265 1 28.95 ? CHD HEM 144 B 1 HETATM 5 C C1A HEM . . . L 7 8.504 -7.79 16.655 1 30.25 ? C1A HEM 144 B 1 HETATM 6 C C2A HEM . . . L 7 7.485 -6.924 16.11 1 29.33 ? C2A HEM 144 B 1 HETATM 7 C C3A HEM . . . L 7 7.213 -7.344 14.872 1 29.74 ? C3A HEM 144 B 1 HETATM 8 C C4A HEM . . . L 7 8.057 -8.478 14.565 1 29.98 ? C4A HEM 144 B 1 HETATM 9 C CMA HEM . . . L 7 6.198 -6.719 13.902 1 30 ? CMA HEM 144 B 1 HETATM 10 C CAA HEM . . . L 7 6.827 -5.738 16.839 1 28.98 ? CAA HEM 144 B 1 HETATM 11 C CBA HEM . . . L 7 7.749 -4.529 16.74 1 28.26 ? CBA HEM 144 B 1 HETATM 12 C CGA HEM . . . L 7 7.108 -3.299 17.323 1 26.57 ? CGA HEM 144 B 1 HETATM 13 O O1A HEM . . . L 7 7.268 -2.213 16.725 1 26 ? O1A HEM 144 B 1 HETATM 14 O O2A HEM . . . L 7 6.433 -3.393 18.373 1 27.21 ? O2A HEM 144 B 1 HETATM 15 C C1B HEM . . . L 7 8.836 -10.253 12.98 1 31.55 ? C1B HEM 144 B 1 HETATM 16 C C2B HEM . . . L 7 8.962 -10.794 11.626 1 32.5 ? C2B HEM 144 B 1 HETATM 17 C C3B HEM . . . L 7 9.781 -11.836 11.661 1 32.45 ? C3B HEM 144 B 1 HETATM 18 C C4B HEM . . . L 7 10.231 -11.999 13.023 1 30.84 ? C4B HEM 144 B 1 HETATM 19 C CMB HEM . . . L 7 8.262 -10.294 10.347 1 33.1 ? CMB HEM 144 B 1 HETATM 20 C CAB HEM . . . L 7 10.182 -12.683 10.439 1 35.24 ? CAB HEM 144 B 1 HETATM 21 C CBB HEM . . . L 7 10.293 -14.011 10.54 1 36.72 ? CBB HEM 144 B 1 HETATM 22 C C1C HEM . . . L 7 11.44 -13.039 14.808 1 29.4 ? C1C HEM 144 B 1 HETATM 23 C C2C HEM . . . L 7 12.306 -14.028 15.381 1 29.3 ? C2C HEM 144 B 1 HETATM 24 C C3C HEM . . . L 7 12.386 -13.778 16.68 1 29.35 ? C3C HEM 144 B 1 HETATM 25 C C4C HEM . . . L 7 11.577 -12.618 17.008 1 28.81 ? C4C HEM 144 B 1 HETATM 26 C CMC HEM . . . L 7 13.005 -15.173 14.625 1 29.69 ? CMC HEM 144 B 1 HETATM 27 C CAC HEM . . . L 7 13.205 -14.619 17.662 1 30.28 ? CAC HEM 144 B 1 HETATM 28 C CBC HEM . . . L 7 12.559 -15.175 18.685 1 30.67 ? CBC HEM 144 B 1 HETATM 29 C C1D HEM . . . L 7 10.88 -10.807 18.601 1 28.53 ? C1D HEM 144 B 1 HETATM 30 C C2D HEM . . . L 7 10.95 -10.21 19.908 1 29.5 ? C2D HEM 144 B 1 HETATM 31 C C3D HEM . . . L 7 10.213 -8.871 19.838 1 30.3 ? C3D HEM 144 B 1 HETATM 32 C C4D HEM . . . L 7 9.766 -8.777 18.471 1 30.03 ? C4D HEM 144 B 1 HETATM 33 C CMD HEM . . . L 7 11.631 -10.807 21.144 1 30.24 ? CMD HEM 144 B 1 HETATM 34 C CAD HEM . . . L 7 10.027 -7.837 20.973 1 31.91 ? CAD HEM 144 B 1 HETATM 35 C CBD HEM . . . L 7 8.737 -8.046 21.776 1 33.15 ? CBD HEM 144 B 1 HETATM 36 C CGD HEM . . . L 7 8.515 -6.844 22.676 1 34.76 ? CGD HEM 144 B 1 HETATM 37 O O1D HEM . . . L 7 7.441 -6.765 23.343 1 36.09 ? O1D HEM 144 B 1 HETATM 38 O O2D HEM . . . L 7 9.402 -5.943 22.723 1 33.63 ? O2D HEM 144 B 1 HETATM 39 N NA HEM . . . L 7 8.832 -8.729 15.686 1 29.67 ? NA HEM 144 B 1 HETATM 40 N NB HEM . . . L 7 9.637 -11.027 13.812 1 30.18 ? NB HEM 144 B 1 HETATM 41 N NC HEM . . . L 7 11.008 -12.19 15.817 1 29.54 ? NC HEM 144 B 1 HETATM 42 N ND HEM . . . L 7 10.172 -9.926 17.783 1 29.27 ? ND HEM 144 B 1 HETATM 43 FE FE HEM . . . L 7 9.867 -10.443 15.772 1 27.08 ? FE HEM 144 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #